High-quality permanent draft genome sequence of the Lebeckia ambigua-nodulating Burkholderia sp. strain WSM4176.

Sofie E De Meyer,Amrita Pati,Wayne Reeve,John Howieson,Rui Tian,Tanja Woyke,Ron Yates,Tbk Reddy,Natalia Ivanova,Rekha Seshadri,Victor Markowitz,Nikos Kyrpides

doi:10.1186/s40793-015-0072-3

Abstract

Burkholderia sp. strain WSM4176 is an aerobic, motile, Gram-negative, non-spore-forming rod that was isolated from an effective N2-fixing root nodule of Lebeckia ambigua collected in Nieuwoudtville, Western Cape of South Africa, in October 2007. This plant persists in infertile, acidic and deep sandy soils, and is therefore an ideal candidate for a perennial based agriculture system in Western Australia. Here we describe the features of Burkholderia sp. strain WSM4176, which represents a potential inoculant quality strain for L. ambigua, together with sequence and annotation. The 9,065,247 bp high-quality-draft genome is arranged in 13 scaffolds of 65 contigs, contains 8369 protein-coding genes and 128 RNA-only encoding genes, and is part of the GEBA-RNB project proposal (Project ID 882).

Highlights

Leguminous pasture species are important in Western Australian agriculture because the soils are inherently infertile
WSM4176 represents a potential inoculant quality strain for Lebeckia ambigua, which is being developed as a grazing legume adapted to infertile soils that receive 250– 400 mm annual rainfall, where climate change has necessitated the domestication of agricultural species with altered characteristics
Symbiotaxonomy Burkholderia sp. strain WSM4176 belongs to a group of Burkholderia strains that nodulate papilionoid forage legumes rather than the classical Burkholderia hosts Mimosa spp. (Mimosoideae) [7]

Summary

Introduction

Leguminous pasture species are important in Western Australian agriculture because the soils are inherently infertile. WSM4176 represents a potential inoculant quality strain for Lebeckia ambigua, which is being developed as a grazing legume adapted to infertile soils that receive 250– 400 mm annual rainfall, where climate change has necessitated the domestication of agricultural species with altered characteristics. This strain is of special interest to the IMG/GEBA project. The Illumina draft data was assembled with Velvet, version 1.1.05 [15], and the consensus sequences were computationally shredded into 1.5 Kbp overlapping fake reads (shreds).

Conclusion

Findings

7.68 Function unknown